PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

AT4G28500.1

Common Name

ANAC073, F20O9.190, NAC073, SND2

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

NAC

Protein Properties

Length: 305aa MW: 33696.8 Da PI: 9.2697

Description

NAC domain containing protein 73

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT4G28500.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	109.9	2.8e-34	59	200	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkk......lelee...vikev.diykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratk.......sg 81 lp+G++F+Ptd+e++ e+L+ kv+++ ++ e +i+ +i++++P++Lp v+++ + +fF++ +k+y+tg+rk+r+++ + AT4G28500.1 59 LPAGVKFDPTDQEVL-EHLEGKVRDDAkklhplID--EfirTIDGEnGICYTHPEKLP-GVNKDGTVRHFFHRPSKAYTTGTRKRRKVHtdsdvggET 152 799********99.99**99966654422..22223554445******.677788899**************744345555578 PP NAM 82 yWkatgkdkevlskkgelvglkktLvfy..kgrapkgektdWvmheyrl 128 +W++tgk+++vl+ +g++ g kk+Lv+y g+++k+ekt+Wvmh+y+l AT4G28500.1 153 RWHKTGKTRPVLA-GGRVRGYKKILVLYtnYGKQKKPEKTNWVMHQYHL 200 8********.9*********6658999**********98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	8.24E-38	53	219	IPR003441	NAC domain
PROSITE profile	PS51005	33.316	59	219	IPR003441	NAC domain
Pfam	PF02365	3.6E-15	60	200	IPR003441	NAC domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0007275	Biological Process	multicellular organism development
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:2000652	Biological Process	regulation of secondary cell wall biogenesis
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0044212	Molecular Function	transcription regulatory region DNA binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000230	anatomy	inflorescence meristem
PO:0000272	anatomy	protoxylem
PO:0000293	anatomy	guard cell
PO:0005352	anatomy	xylem
PO:0005848	anatomy	secondary xylem
PO:0009032	anatomy	petal
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0025022	anatomy	collective leaf structure
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 305 aa Download sequence Send to blast
MTWCNDRSDV QTVERIIPSP GAAESPVASL PVSCHKTCPS CGHNFKFHEQ AGIHDLPGLP 60 AGVKFDPTDQ EVLEHLEGKV RDDAKKLHPL IDEFIRTIDG ENGICYTHPE KLPGVNKDGT 120 VRHFFHRPSK AYTTGTRKRR KVHTDSDVGG ETRWHKTGKT RPVLAGGRVR GYKKILVLYT 180 NYGKQKKPEK TNWVMHQYHL GTSEEEKEGE LVVSKVFYQT QPRQCGGSVA AAATAKDRPY 240 LHGLGGGGGR HLHYHLHHNN GNGKSNGSGG TAGAGEYYHN IPAIISFNQT GIQNHLVHDS 300 QPFIP

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	145347592	0.0
Genevisible	253798_at	0.0
Expression Atlas	AT4G28500	-
AtGenExpress	AT4G28500	-
ATTED-II	AT4G28500	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in protoxylem and elongating interfascicular fiber cells of elongating internodes, developing metaxylem cells and interfascicular fibers of non-elongating internodes and developing secondary xylem of roots. {ECO:0000269\|PubMed:18952777}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional activator that plays a regulatory role in the development of secondary cell wall fibers (PubMed:18952777,PubMed:22133261). Involved in the regulation of cellulose and hemicellulose biosynthetic genes as well as of genes involved in lignin polymerization and signaling (PubMed:22133261). Is not a direct target of SND1 (PubMed:18952777). {ECO:0000269\|PubMed:18952777, ECO:0000269\|PubMed:22133261}.

Function -- GeneRIF ? help Back to Top
SND2 regulates cellulose and hemicellulose biosynthetic genes in addition to those involved in lignin polymerization and signalling. [PMID: 22133261]

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00459	DAP	27203113	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT4G28500.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Regulation -- ATRM (Manually Curated Upstream Regulators) ? help Back to Top
Source	Upstream Regulator (A: Activate/R: Repress)
ATRM	AT1G32770 (A)

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT4G28500

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	DQ056658	0.0	DQ056658.1 Arabidopsis thaliana no apical meristem family protein (At4g28500) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_194579.1	0.0	NAC domain containing protein 73
Swissprot	O49459	0.0	NAC73_ARATH; NAC domain-containing protein 73
TrEMBL	A0A178V4Y3	0.0	A0A178V4Y3_ARATH; SND2
STRING	AT4G28500.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2012	28	81
Representative plant	OGRP525	15	85

Link Out ? help Back to Top
Phytozome	AT4G28500.1
Entrez Gene	828968
iHOP	AT4G28500
wikigenes	AT4G28500

Publications ? help Back to Top
Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Ooka H, et al. Comprehensive analysis of NAC family genes in Oryza sativa and Arabidopsis thaliana. DNA Res., 2003. 10(6): p. 239-47 [PMID:15029955] Zhao C,Craig JC,Petzold HE,Dickerman AW,Beers EP The xylem and phloem transcriptomes from secondary tissues of the Arabidopsis root-hypocotyl. Plant Physiol., 2005. 138(2): p. 803-18 [PMID:15923329] Andersson-Gunner Biosynthesis of cellulose-enriched tension wood in Populus: global analysis of transcripts and metabolites identifies biochemical and developmental regulators in secondary wall biosynthesis. Plant J., 2006. 45(2): p. 144-65 [PMID:16367961] Zhong R,Demura T,Ye ZH SND1, a NAC domain transcription factor, is a key regulator of secondary wall synthesis in fibers of Arabidopsis. Plant Cell, 2006. 18(11): p. 3158-70 [PMID:17114348] Ko JH,Yang SH,Park AH,Lerouxel O,Han KH ANAC012, a member of the plant-specific NAC transcription factor family, negatively regulates xylary fiber development in Arabidopsis thaliana. Plant J., 2007. 50(6): p. 1035-48 [PMID:17565617] Zhong R,Richardson EA,Ye ZH The MYB46 transcription factor is a direct target of SND1 and regulates secondary wall biosynthesis in Arabidopsis. Plant Cell, 2007. 19(9): p. 2776-92 [PMID:17890373] Srinivasasainagendra V,Page GP,Mehta T,Coulibaly I,Loraine AE CressExpress: a tool for large-scale mining of expression data from Arabidopsis. Plant Physiol., 2008. 147(3): p. 1004-16 [PMID:18467456] Lasserre E,Jobet E,Llauro C,Delseny M AtERF38 (At2g35700), an AP2/ERF family transcription factor gene from Arabidopsis thaliana, is expressed in specific cell types of roots, stems and seeds that undergo suberization. Plant Physiol. Biochem., 2008. 46(12): p. 1051-61 [PMID:18723362] Pogorelko GV,Fursova OV A highly efficient miPCR method for isolating FSTs from transgenic Arabidopsis thaliana plants. J. Genet., 2008. 87(2): p. 133-40 [PMID:18776641] Zhong R,Lee C,Zhou J,McCarthy RL,Ye ZH A battery of transcription factors involved in the regulation of secondary cell wall biosynthesis in Arabidopsis. Plant Cell, 2008. 20(10): p. 2763-82 [PMID:18952777] Grant EH,Fujino T,Beers EP,Brunner AM Characterization of NAC domain transcription factors implicated in control of vascular cell differentiation in Arabidopsis and Populus. Planta, 2010. 232(2): p. 337-52 [PMID:20458494] Hanada K, et al. Functional compensation of primary and secondary metabolites by duplicate genes in Arabidopsis thaliana. Mol. Biol. Evol., 2011. 28(1): p. 377-82 [PMID:20736450] Gaudinier A, et al. Enhanced Y1H assays for Arabidopsis. Nat. Methods, 2011. 8(12): p. 1053-5 [PMID:22037706] Hussey SG, et al. SND2, a NAC transcription factor gene, regulates genes involved in secondary cell wall development in Arabidopsis fibres and increases fibre cell area in Eucalyptus. BMC Plant Biol., 2011. 11: p. 173 [PMID:22133261] Sakamoto S,Mitsuda N Reconstitution of a secondary cell wall in a secondary cell wall-deficient Arabidopsis mutant. Plant Cell Physiol., 2015. 56(2): p. 299-310 [PMID:25535195] Jin J, et al. An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors. Mol. Biol. Evol., 2015. 32(7): p. 1767-73 [PMID:25750178] Jervis J, et al. A metabolomic assessment of NAC154 transcription factor overexpression in field grown poplar stem wood. Phytochemistry, 2015. 115: p. 112-20 [PMID:25771508]